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Aliases & Descriptions for VLDLR
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases CHRMQ1 2 , 5 FLJ35024 2 OTTHUMP00000020982 2 OTTHUMP00000020983 2 VLDL-R 3 VLDLRCH 2
Descriptions VLDL receptor 3 Very low-density lipoprotein receptor 2 very low density lipoprotein receptor 2
Search outside databases for aliases for VLDLR genePrevious GC identifers: GC09P002776 GC09P002603 GC09P002612
Summaries for VLDLR (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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UniProtKB/Swiss-Prot: VLDLR_HUMAN, P98155 Function : Binds VLDL and transports it into cells by endocytosis. In order to be internalized, thereceptor-ligand complexes must first cluster into clathrin-coated pits. Binding to Reelin inducestyrosine phosphorylation of Dab1 and modulation of Tau phosphorylation (By similarity)
Genomic Location for VLDLR
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
Genomic Views according to
UCSC and
Ensembl ,
Transcription factor binding sites according to
SABiosciences )About This Section
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the VLDLR gene Entrez Gene cytogenetic band: 9p24 Ensembl cytogenetic band: 9p24.2 HGNC cytogenetic band: 9p24 VLDLR Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc gene densities for chromosome 9 GeneLoc Exon Structure
GeneLoc location for GC09P002611:
(about GC identifiers )
Start:
2,611,793 bp from pter
End:
2,644,485 bp from pter
Size:
32,693 bases
Orientation:
plus strand
RefSeq DNA sequence: NC_000009.10 NT_008413.17 Proteins for VLDLR
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: VLDLR_HUMAN, P98155 (See
protein sequence )Recommended Name: Very low-density lipoprotein receptor precursor Size : 873 amino acids; 96098 Da
Subunit : Binds to the extracellular matrix protein Reelin. Interacts with VLDLR. Interacts withSNX17 (By similarity). Interacts with DAB1. Receptor for the minor-group human rhinoviruses(HRVs); binds protein VP1 through the second and third LDL-receptor class A domains
Subcellular location : Membrane; Single-pass type I membrane protein. Membrane, clathrin-coated pit;Single-pass type I membrane protein
PDB structure from and Proteopedia : 1V9U (3D)
 3DPR (3D)
 
Secondary accessions : Q5VVF6Alternative splicing : 2 isoforms : P98155-1 P98155-2
Post-translational modifications:
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins (2 alternative transcripts):
NP_001018066.1 NP_003374.3 ENSEMBL proteins: ENSP00000276891 ENSP00000371566 ENSP00000371528 ENSP00000371524 ENSP00000371532 ENSP00000371531 ENSP00000381016 Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 5 Gene Ontology (GO) cellular component terms (links to tree view) :
About this table Antibodies for VLDLR: Assays for VLDLR:
Protein
Domains/ Families for VLDLR(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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Graphical View of Domain Structure for InterPro Entry P98155 ProtoNet protein and cluster: P98155
4 Blocks protein families : IPB000033 Low-density lipoprotein receptor IPB000152 Aspartic acid and asparagine hydroxylation site IPB001881 EGF-like calcium-binding IPB002172 Low density lipoprotein-receptor UniProtKB/Swiss-Prot: VLDLR_HUMAN, P98155 Similarity : Contains 3 EGF-like domainsSimilarity : Contains 8 LDL-receptor class A domainsSimilarity : Contains 6 LDL-receptor class B repeats
Gene Function for VLDLR
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
shRNA from
OriGene ,
Sigma-Aldrich , RNAi from
Sigma-Aldrich ,
RNAi Products ,
Clones , and
Q-PCR Products
from Invitrogen ,
Millipore ,
OriGene , and/or
Abnova ,
siRNAs from
Applied Biosystems ,
SYBR primers from OriGene ,
Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_003383 Applied Biosystems Silencer ® siRNAs for VLDLR Sigma-Aldrich siRNA and siRNA Panels for VLDLR Sigma-Aldrich shRNA for VLDLR Explore Sigma-Aldrich super-pooled esiRNAs                OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001018056                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001018056                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_001018056  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_003383 UniProtKB/Swiss-Prot: VLDLR_HUMAN, P98155 Function : Binds VLDL and transports it into cells by endocytosis. In order to be internalized, thereceptor-ligand complexes must first cluster into clathrin-coated pits. Binding to Reelin inducestyrosine phosphorylation of Dab1 and modulation of Tau phosphorylation (By similarity)
Genatlas biochemistry entry for VLDLR :very low density lipoprotein/ApoE receptor,containing a CGG repeat in 5'utr,(may be asusceptibility gene for late onset senile Alzheimer disease)
9 MGI mutant phenotypes (inferred from 1 allele ) (MGI details for Vldlr) :4 Gene Ontology (GO) molecular function terms (links to tree view) :
About this table
Pathways & Interactions for VLDLR
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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1 Sigma-Aldrich "Your Favorite Gene" Pathway for VLDLR (Your Favorite Gene powered by Ingenuity) Gene Network CentralTM Interacting Genes and Proteins Network for VLDLR 5/30 Interacting proteins for VLDLR (ENSP00000371532 3 ) via UniProtKB, MINT, and/or STRING (see all 30
)About this table 5/9 Gene Ontology (GO) biological process terms (links to tree view) (see all 9
):
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Drugs & Compounds for VLDLR (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
Sigma-Aldrich , Tocris Bioscience , and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB )
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Browse Tocris compounds for VLDLR 8 Novoseek chemical compound relationships for VLDLR gene
Compound
Score
Articles
PubMed IDs for Articles with Shared Sentences (# sentences)
cholesterol
38.61
15
11839845 (3), 15010349 (1), 17685481 (1), 7918302 (1) (see all 10 )
lipid
36.77
16
10488949 (2), 15863833 (2), 9410893 (1), 9409253 (1) (see all 9 )
sterol
18.39
3
7828550 (1), 10488949 (1)
fatty acid
14.25
2
16957181 (1), 9264123 (1)
triacylglycerol
8.42
3
7925422 (1), 12840916 (1)
phosphoinositide
1.48
1
15883038 (1)
phospholipid
0.00
1
8409765 (1)
tyrosine
0.00
2
11854295 (1), 15883038 (1)
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Transcripts for VLDLR(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
non coding RNAs according to
RNAdb ,
ESTs according to GeneTide ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,
RNAi Products from Invitrogen ,
Millipore , and/or
Abnova ,
siRNAs from Applied Biosystems ,
Sigma-Aldrich ,
shRNA from
Sigma-Aldrich ,
OriGene ,
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OriGene , Expression Assays from Applied Biosystems )About This Section
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_003383 Sigma-Aldrich siRNA and siRNA Panels for VLDLR Sigma-Aldrich shRNA for VLDLR Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_001018056 NM_003383
REFSEQ mRNAs for VLDLR gene (2 alternative transcripts): NM_001018056.1 NM_003383.3
Applied Biosystems TaqMan ® Gene Expression Assays: NM_001018056 NM_003383
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001018056                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001018056                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_001018056  
Additional cDNA sequence: AB208822.1 AK092381.1 AK095744.1 AK289527.1 BC136562.1 BC142653.1 BC144245.1 CR599863.1 CR620590.1 D16493.1 D16494.1 L20470.1 L22431.1 S73849.1
11 DOTS entries : DT.95162785 DT.445283 DT.95162788 DT.121199610 DT.95162786 DT.100783166 DT.40202618 DT.92007717 DT.445284 DT.95162789 DT.121199462
24/110 AceView cDNA sequences (see all 110
):BM810111 BM558836 AU125996 AU132660 D16493 T07960 AK092381 BM987917 BU634296 CN479223 BU633666 AA758887 D16494 AU130860 AX747508 BE742166 BX508834 AA461614 CR599863 BE348247 AA357050 BU677670 BE733087 CR620590
highest scoring ESTs for VLDLR :AA247557 AA758887 AA971809 AA993057 AI050969 AI149365 AI288314 AI299085 AI352229 AI392663
Unigene Cluster for VLDLR: Very low density lipoprotein receptor Hs.370422 [show with all ESTs ] Unigene Representative Sequence: L20470 GeneLoc Exon Structure 5/9 Alternative Splicing Database (ASD) splice patterns (SP) for VLDLR (see all 9
) ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15a · 15b ^ 16a · 16b · SP1 :             -                           -   -             SP2 :             -                                         SP3 :                                                     SP4 :                                         -             SP5 :                                         -            
About this scheme ECgene alternative splicing isoforms for VLDLR 7 Ensembl transcripts including schematic representations : ENST00000276891
ENST00000382131
ENST00000382096
ENST00000382092
ENST00000382100
ENST00000382099
ENST00000397921
Expression for VLDLR
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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VLDLR expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for VLDLR 1 / 2 / 3
3 probe-sets matching VLDLR gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: AACTTTGACASOURCE GeneReport for Unigene cluster: Hs.370422 Expression variation in blood from EXPOLDB for VLDLR
UniProtKB/Swiss-Prot: VLDLR_HUMAN, P98155 Tissue specificity : Abundant in heart and skeletal muscle; also ovary and kidney; not in liver
Orthologs for VLDLR
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for VLDLR gene from 5/13 species (see all 13
)
About this table Species with no ortholog for VLDLR ENSEMBL Gene Tree for VLDLR Paralogs for VLDLR (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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Paralogs for VLDLR gene LRP2 2 LDLR 2 LRP8 2
SNPs/Variants for VLDLR (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for VLDLR (up to first 250kb)
Disorders & Mutations for VLDLR
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
Novoseek , PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
BCGD ,
and/or TGDB .)
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OMIM: 192977 disorders : 224050 UniProtKB/Swiss-Prot: VLDLR_HUMAN, P98155
Deletions involving VLDLR may be the cause of VLDLR-associated cerebellar hypoplasia(VLDLRCH) [MIM:224050]; also known as dysequilibrium syndrome (DES) or non-progressive cerebellardisorder with mental retardation. VLDLRCH is a syndrome characterized by moderate-to-profoundmental retardation, delayed ambulation, and predominantly truncal ataxia. Additional featuresinclude strabismus and pesplanus in the majority of patients, seizures in 40% of patients, andshort stature in 15% of patients. Magnetic resonance imaging demonstrates inferior cerebellarhypoplasia and mild cortical gyral simplification
10/15 Novoseek disease relationships for VLDLR gene (see all 15
)
Disease
Score
Articles
PubMed IDs for Articles with Shared Sentences (# sentences)
cerebellar hypoplasia
63.38
2
18043714 (1), 18364738 (1)
alzheimers disease
44.22
13
8786409 (2), 9562467 (2), 8761993 (2), 9577654 (1) (see all 9 )
hypertriglyceridemia
40.51
2
16478678 (1), 11790777 (1)
senile plaques
29.00
3
8786409 (2), 11743951 (1)
atherosclerosis
28.98
4
19224153 (1), 8669483 (1), 11254915 (1)
adenocarcinoma gastric
17.20
3
10629142 (2), 15884130 (1)
autistic
11.09
2
15820235 (1), 12363388 (1)
tumors
3.60
2
16715143 (1), 10629142 (1)
cancer
1.76
4
9346319 (2), 16715143 (1), 10629142 (1)
renal disease
0.00
1
9430847 (1)
About this table GeneTests: VLDLR VLDLR-Associated Cerebellar Hypoplasia Human Gene Mutation Database : VLDLR Genetic Association Database: VLDLR Human Genome Epidemiology Navigator: VLDLR (10 documents)
Medical News for VLDLR (Possibly Related Articles in
Doctor's Guide )
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--
Publications for VLDLR (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/180 PubMed articles for VLDLR gene (see all 180
): Structure, chromosome location, and expression of the human very low density lipoprotein receptor gene. (PubMed id 8294473) 1, 2, 3, 4 Sakai J.... Yamamoto T. (1994) Human very-low-density lipoprotein receptor complementary DNA and deduced amino acid sequence and localization of its gene (VLDLR) to chromosome band 9p24 by fluorescence in situ hybridization. (PubMed id 8020981) 1, 3, 4 Oka K.... Chan L. (1994) Functional candidate genes in age-related macular degeneration: significant association with VEGF, VLDLR, and LRP6. (PubMed id 16384981) 1, 3, 6 Haines J.L....Pericak-Vance M.A. (2006) Association of polymorphisms in CYP17A1, MTP, and VLDLR with bone mineral density in community-dwelling Japanese women and men. (PubMed id 15953542) 1, 3, 6 Yamada Y....Shimokata H. (2005) A cellular receptor of human rhinovirus type 2, the very-low-density lipoprotein receptor, binds to two neighboring proteins of the viral capsid. (PubMed id 12857919) 1, 3, 4 Neumann E.... Hewat E.A. (2003) The relationship among apolipoprotein(a) polymorphisms, the low-density lipoprotein receptor-related protein, and the very low density lipoprotein receptor genes, and plasma lipoprotein(A) concentration in the Czech population. (PubMed id 11931574) 1, 3, 6 Benes P....Vacha J. (2002) Association analysis of polymorphic CGG repeat in 5' UTR of the reelin and VLDLR genes with schizophrenia. (PubMed id 12363388) 1, 3, 6 Akahane A....Nanko S. (2002) VLDL receptor polymorphism, cognitive impairment, and dementia. (PubMed id 11342683) 1, 3, 6 Helbecque N....Amouyel P. (2001) Homozygous deletion of the very low density lipoprotein receptor gene causes autosomal recessive cerebellar hypoplasia with cerebral gyral simplification. (PubMed id 16080122) 1, 3, 4 Boycott K.M....Parboosingh J.S. (2005) DNA sequence and analysis of human chromosome 9. (PubMed id 15164053) 3, 4 Humphray S.J.... Dunham I. (2004)
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Genome Databases showing VLDLR
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing VLDLR
(According to HUGE )
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Specialized Databases showing VLDLR (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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Name Description
SeattleSNPs http://pga.gs.washington.edu/data/vldlr/
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-- Services for VLDLR (Reagents available from Applied Biosystems , Antibodies and assays by Cell
Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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Products for VLDLR:
Search Tocris compounds for VLDLR
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Aliases for VLDLR
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GeneCards Homepage - Last full update: 2 Jul 2009
Incremental update: 13 Oct 2009